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<title>Bioproof</title>
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<h2>Bioproofer</h2>
<b>Directions:</b>Paste the sequences to be analyzed in the box below in FASTA format.  Then, select what should be checked.
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<i>Verify sequence type:</i>
This will check the sequences against the BLAST database and search for keywords.  The keywords must be entered in conjunctive normal form.  That is, they need to be or-statements that are anded together.  The "or" is done with a comma, and the "and" with a semicolon.
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(this OR that) AND this2 =&gt; this,that;this2
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<i>Check stop codons:</i>
This will check that there are no stop codons in at least one reading frame
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<form name="input" action="valid.cgi" method="post">

<textarea rows="20" cols="80" name="data"></textarea>
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<input type="checkbox" name="verify" value="yes" />Verify sequence type with keywords: <input type="text" size="50" name="keywords" /><br/> 
<input type="checkbox" name="codons" value="yes" />Check stop codons
<select name="codontable">
<option value="1">Standard</option>
<option value="2">Vertebrate Mitochondrial</option>
<option value="3">Yeast Mitochondiral</option>
<option value="4">Mold, Protozoan, and Coelenterate Mitochondrial</option>
<option value="5">Invertebrate Mitochondrial</option>
<option value="6">Ciliate, Dasycladacean and Hexamita Nuclear</option>
<option value="9">Echinoderm Mitochondrial</option>
<option value="10">Euplotid Nuclear</option>
<option value="11">Bacterial</option>
<option value="12">Alternative Yeast Nuclear</option>
<option value="13">Ascidian Mitochondrial</option>
<option value="14">Flatworm Mitochondrial</option>
<option value="15">Blepharisma Nuclear</option>
<option value="16">Chlorophycean Mitochondiral</option>
<option value="21">Trematode Mitochondrial</option>
<option value="22">Scenedesmus obliquus Mitochondiral</option>
<option value="23">Thraustochytrium Mitochondrial</option>
</select>
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Email Address (optional): <input type="text" name="email" size="50" />
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Job Name (optional): <input type="text" name="name" size="50" />
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<input type="submit" value="Submit" />
</form>

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